# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.soe.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1l0qA 391 6.53e-11 b.1.3.1,b.69.2.3 77644,77645 2c4xA 260 6.44e-08 1b4rA 80 5.36e-04 1b4rA b.1.3.1 22072 1wgoA 123 2.85e-03 b.1.3.1 114618 3c12A 138 1.49e-01 2iouG 535 3.97e-01 2yrlA 102 4.23e-01 1d2pA 373 6.04e-01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 2kpnA 103 6.88e-01 1yrzA 528 7.60e-01 b.29.1.23,b.67.2.1 123948,123949 1fsoA 139 8.42e-01 1rhoA b.1.18.8 60007 3mmyA 368 1.63e+00 3bp5B 202 1.73e+00 3bp6B 202 1.87e+00 2gm6A 208 1.89e+00 b.82.1.19 147130 1wcqA 601 1.90e+00 b.1.18.2,b.18.1.1,b.68.1.1 120894,120895,120896 1eut 605 2.00e+00 1eut 1rhoA 145 2.18e+00 1rhoA b.1.18.8 21899 1hnf 182 2.58e+00 1qa9A 1hnfA 182 2.58e+00 b.1.1.1,b.1.1.3 19741,21680 1w8oA 601 2.64e+00 b.1.18.2,b.18.1.1,b.68.1.1 114374,114375,114376 3ecrA 364 2.72e+00 2ghsA 326 2.85e+00 b.68.6.1 135209 3hi7A 731 2.87e+00 1kmtA 141 2.98e+00 b.1.18.8 77442 1d2oA 187 3.04e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1cvsC 225 3.15e+00 1cvsC b.1.1.4,b.1.1.4 21726,21727 3cjjA 219 3.32e+00 1pguA 615 3.38e+00 b.69.4.1,b.69.4.1 88069,88070 2x42A 721 3.96e+00 1ev2E 220 4.19e+00 1cvsC b.1.1.4,b.1.1.4 21738,21739 2x10A 545 4.89e+00 3g12A 128 5.26e+00 2x41A 721 5.67e+00 1zvfA 176 6.01e+00 b.82.1.20 146029 3bgaA 1010 6.06e+00 2vqeK 129 6.43e+00 c.55.4.1 153435 2uubK 129 6.55e+00 c.55.4.1 139942 2k7qA 191 7.06e+00 2uvfA 608 7.34e+00 1zq1A 438 7.86e+00 b.38.3.1,c.88.1.1 125489,125490 1fjgK 129 7.92e+00 1fjfK c.55.4.1 33733 2ux7A 122 8.06e+00 1fnhA 271 8.19e+00 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1v8hA 107 8.22e+00 b.1.18.19 119870 3f7pC 248 8.73e+00 2gk6A 624 9.19e+00 3hxjA 330 9.81e+00 3f7qA 234 1.04e+01 1ofzA 312 1.06e+01 b.68.8.1 86978 1vqoB 338 1.06e+01 b.43.3.2 120363 1ds6B 180 1.07e+01 1rhoA b.1.18.8 21898 1qg3A 195 1.07e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1xf1A 926 1.09e+01 1dabA 539 1.10e+01 1dabA b.80.1.7 28049 1itbB 315 1.11e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 2iepA 192 1.12e+01 1ymiA 334 1.32e+01 1n9pA 207 1.33e+01 b.1.18.16 80343 3eifA 936 1.43e+01 2aq5A 402 1.44e+01 1jwhA 337 1.45e+01 d.144.1.7 71913 1a6cA 513 1.46e+01 1a6cA b.121.4.2,b.121.4.2,b.121.4.2 23296,23297,23298 3es6B 118 1.54e+01 b.1.18.23 158195 3kg7A 293 1.56e+01 1wit 93 1.57e+01 1wit 2zuyA 620 1.59e+01 2hu5A 582 1.61e+01 b.69.7.2,c.69.1.33 136763,136764 2h1tA 188 1.61e+01 b.178.1.1 147215 3d48R 211 1.62e+01 b.1.2.1,b.1.2.1 157289,157290 2jllA 389 1.63e+01 1bqk 124 1.65e+01 1bqk 1bqkA 124 1.65e+01 b.6.1.1 22889 2wjyA 800 1.69e+01 1h91A 180 1.75e+01 b.60.1.1 60805 3fw6A 534 1.79e+01 1l6zA 216 1.79e+01 b.1.1.1,b.1.1.4 77770,77771 1am2 199 1.82e+01 1am2 1am2A 199 1.82e+01 b.86.1.2 28381 1f97A 212 1.85e+01 1f97A b.1.1.1,b.1.1.4 19763,21764 1np1A 184 1.90e+01 1np1A b.60.1.1 27155 1zupA 315 1.91e+01 c.55.3.11 125681 1tueB 218 1.93e+01 b.91.1.1 107324 2vxsH 225 1.96e+01 3ii1A 535 1.97e+01 1qqhA 144 1.99e+01 1dtoA b.91.1.1 28404 1g0dA 695 2.00e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 60166,60167,60168,60169 1io1A 398 2.03e+01 1io1A e.32.1.1 62611 2pvrA 334 2.04e+01 d.144.1.7 149893 3l5jA 288 2.07e+01 2va4A 192 2.10e+01 3dkhA 559 2.11e+01 1s3rA 535 2.13e+01 1yifA 533 2.15e+01 b.29.1.23,b.67.2.1 123283,123284 1rovA 857 2.20e+01 a.119.1.1,b.12.1.1 97674,97675 3besR 250 2.27e+01 3duiA 135 2.29e+01 2qwc 388 2.31e+01 2qwc 3iswA 99 2.32e+01 2egeA 75 2.35e+01 2vc8A 84 2.35e+01 1bev1 281 2.36e+01 1aym1 3kstA 306 2.37e+01 1jj2B 337 2.37e+01 1ffkB b.43.3.2 63086 3e0gA 483 2.37e+01 2j43A 219 2.38e+01 b.3.1.3,b.3.1.3 147864,147865 3mb7A 331 2.43e+01 2w18A 356 2.44e+01 1fhgA 154 2.46e+01 1tlk b.1.1.4 21706 3ednA 299 2.48e+01 2v9lA 274 2.48e+01 1ctn 540 2.49e+01 1ctn 1gt7A 274 2.49e+01 c.74.1.1 70398 1ojrA 274 2.51e+01 c.74.1.1 93147 3l5iA 290 2.52e+01 3hr5B 226 2.54e+01 1tlk 154 2.55e+01 1tlk 2wk2A 540 2.56e+01 2wlzA 548 2.56e+01 3h6jA 438 2.57e+01 1pamA 686 2.58e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 2retB 175 2.62e+01 d.24.1.5 151984 1loxA 662 2.62e+01 a.119.1.2,b.12.1.1 19238,23638 1lox 662 2.62e+01 1lox 1pmyA 123 2.64e+01 b.6.1.1 22888 1k9tA 540 2.67e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 3kldA 384 2.68e+01 2q9oA 559 2.72e+01 b.6.1.3,b.6.1.3,b.6.1.3 150149,150150,150151 3l5hA 589 2.75e+01 1i4uA 181 2.75e+01 b.60.1.1 61732 1pqzA 238 2.76e+01 b.1.1.2,d.19.1.1 104297,104298 1u58A 253 2.77e+01 b.1.1.2,d.19.1.1 144387,144388 2dwcA 433 2.78e+01 2p0mA 662 2.80e+01 a.119.1.2,b.12.1.1 149136,149137 1f6fB 210 2.82e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 2vnlA 151 2.83e+01 2bbkH 355 2.83e+01 2bbkH b.69.2.1 27634 1edqA 540 2.84e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1yfuA 174 2.85e+01 b.82.1.20 123094 2w0pA 94 2.87e+01 b.1.18.10 153738 3ejjX 289 2.89e+01 2v8qA 157 2.90e+01 d.129.6.2 152781 1boy 219 2.90e+01 1boy 2qr5A 582 2.92e+01 b.69.7.2,c.69.1.33 151278,151279 1vpsA 289 2.95e+01 1vpsA b.121.6.1 23336 3c2uA 538 2.96e+01 2gc7A 386 2.97e+01 b.69.2.1 134954 1f8eA 388 2.97e+01 2qwc b.68.1.1 59694 2w38A 438 3.03e+01 2hdwA 367 3.08e+01 3bqcA 335 3.08e+01 d.144.1.7 155497 1r5mA 425 3.15e+01 2v90A 96 3.16e+01 3e8vA 82 3.19e+01 1lktA 104 3.27e+01 1lktA b.90.1.1 28398 2p0dA 129 3.28e+01 2brqA 97 3.28e+01 b.1.18.10 129008 2vqaA 361 3.29e+01 3gldA 295 3.39e+01 1td4A 115 3.43e+01 b.85.2.1 112389 1dceA 567 3.45e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 3m7aA 140 3.59e+01 2g8cO 251 3.71e+01 1a22B 238 3.71e+01 1axiB b.1.2.1,b.1.2.1 22003,22004 2gnqA 336 3.84e+01 2ifsA 169 3.85e+01 3holA 509 3.88e+01 2hz7A 851 3.90e+01 2iwgB 181 3.97e+01 b.29.1.22 145548 2qtwB 546 4.03e+01 1n6eA 1071 4.09e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 80149,80150,80151,80152 1bpoA 494 4.09e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 1lxkA 721 4.10e+01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 3f7rA 249 4.19e+01 2bvyA 475 4.20e+01 b.1.18.2,c.1.8.3 129301,129302 2hkdA 320 4.29e+01 3greA 437 4.29e+01 1eguA 731 4.30e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 3hhrB 203 4.30e+01 1axiB b.1.2.1,b.1.2.1 22005,22006 1q47A 495 4.34e+01 b.69.12.1 104532 3grwA 241 4.40e+01 2hqsA 415 4.42e+01 b.68.4.1,c.51.2.1 136662,136663 2qxlA 658 4.42e+01 2uxtA 451 4.45e+01 1jaeA 471 4.46e+01 b.71.1.1,c.1.8.1 27773,28760 3c75H 426 4.51e+01 2ih8A 559 4.53e+01 b.6.1.3,b.6.1.3,b.6.1.3 137407,137408,137409 3lk42 277 4.54e+01 3gleA 295 4.57e+01 1ejeA 192 4.64e+01 1ejeA b.45.1.2 25757 1tbgA 340 4.64e+01 1tbgA b.69.4.1 27649 2a4dA 160 4.65e+01 d.20.1.1 126152 3jv1A 182 4.71e+01 3d2fA 675 4.80e+01 2qvkA 192 4.80e+01 2v5mA 388 4.81e+01 2h14A 317 4.83e+01 1cs6A 382 4.89e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1cjcA 460 4.95e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 2v3fA 505 4.97e+01 b.71.1.2,c.1.8.3 152453,152454 1spiA 358 4.98e+01 1frpA e.7.1.1 42939 1crzA 403 5.02e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 3lk2B 243 5.06e+01 1iznB 277 5.08e+01 e.43.1.2 83848 3emhA 318 5.18e+01 3khfA 99 5.19e+01 3emwA 217 5.19e+01 1vjuA 309 5.20e+01 d.248.1.1 100835 3gosA 276 5.22e+01 1u36A 106 5.27e+01 b.1.18.1 107635 1cxlA 686 5.33e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 2z3zA 706 5.33e+01 3i94A 248 5.39e+01 1wcuA 153 5.42e+01 2qqrA 118 5.52e+01 b.34.9.1,b.34.9.1 151226,151227 2huhA 147 5.55e+01 b.7.5.1 147405 3e0eA 97 5.55e+01 1evuA 731 5.58e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1zx4A 192 5.61e+01 1axiB 236 5.64e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 2bgzA 299 5.65e+01 2bwrA 401 5.65e+01 1wwcA 118 5.66e+01 1wwcA b.1.1.4 21778 1bquA 215 5.67e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 2grgA 120 5.69e+01 d.110.10.1 147159 2sak 121 5.72e+01 2sak 2sakA 121 5.72e+01 d.15.5.1 37711 1ebpA 211 5.76e+01 1eerB b.1.2.1,b.1.2.1 22023,22024 1ot1A 686 5.78e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1yq5A 144 5.79e+01 3ef4A 124 5.80e+01 3b3qE 197 5.80e+01 b.29.1.4 154813 3h51A 156 5.84e+01 3m4wA 295 5.89e+01 3kptA 355 5.92e+01 2p4eA 692 5.93e+01 1tfpA 130 5.93e+01 1etb1 b.3.4.1 22623 2d5lA 706 5.97e+01 2hxsA 178 5.99e+01 1n7vA 555 5.99e+01 b.126.1.1 85377 3fv3A 339 6.02e+01 2madH 373 6.02e+01 2bbkH b.69.2.1 27639 2wklA 497 6.17e+01 1qhuA 460 6.19e+01 1qhuA b.66.1.1,b.66.1.1 27530,27531 2tbvA 387 6.22e+01 2tbvA b.121.4.7 23302 1lnsA 763 6.22e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 3cdzA 754 6.22e+01 2d1eA 248 6.23e+01 3tdt 274 6.28e+01 3tdt 3tdtA 274 6.28e+01 b.81.1.2 28053 1mkeA 152 6.30e+01 b.55.1.4 79231 2v5sA 394 6.34e+01 1u9tA 354 6.34e+01 e.62.1.1 119651 3ejvA 179 6.35e+01 d.17.4.28 158181 2bk8A 97 6.45e+01 1qlgA 355 6.47e+01 1qlgA b.68.3.1 27627 1aonO 97 6.48e+01 b.35.1.1 24642 1pfo 500 6.48e+01 1pfo 1pfoA 500 6.48e+01 f.9.1.1 43826 2nt0A 497 6.50e+01 b.71.1.2,c.1.8.3 138561,138562 1pz5B 220 6.56e+01 b.1.1.1,b.1.1.2 95403,95404 1d3cA 686 6.60e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 2h4vA 320 6.61e+01 1aac 105 6.69e+01 1aac 3ktzA 251 6.69e+01 1xnb 185 6.83e+01 1axkA 1w6sA 599 6.83e+01 b.70.1.1 114284 1sqsA 242 6.85e+01 c.23.5.5 98968 2imlA 199 6.85e+01 b.45.1.4 147729 3g7dA 443 6.85e+01 2hahA 116 6.87e+01 2iwkA 642 6.89e+01 1ffkB 338 6.91e+01 1ffkB b.43.3.2 25719 3bonA 425 6.91e+01 d.92.1.7 155457 2volA 207 6.93e+01 1bxvA 91 6.94e+01 1aac b.6.1.1 22875 1a25A 149 6.95e+01 1rsy b.7.1.2 23197 3gnjA 111 7.02e+01 2dcyA 185 7.05e+01 b.29.1.11 131388 2petA 231 7.07e+01 1x0cA 549 7.11e+01 2k14A 84 7.14e+01 1utcA 363 7.17e+01 a.118.1.4,b.69.6.1 99914,99915 1xdiA 499 7.25e+01 c.3.1.5,d.87.1.1 115160,115161 2z79A 185 7.28e+01 2mspA 126 7.31e+01 1mspA b.1.11.2 22335 1s4uX 407 7.41e+01 b.69.4.1 112027 2ns9A 157 7.42e+01 d.129.3.10 148382 1zgsA 447 7.54e+01 1rzjG 321 7.57e+01 d.172.1.1 98200 2fgqX 332 7.58e+01 f.4.3.1 133439 1e54A 332 7.59e+01 1e54A f.4.3.1 59258 2bz6H 254 7.67e+01 b.47.1.2 129552 2z5wA 136 7.70e+01 1k3iA 656 7.71e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 2b5iC 199 7.74e+01 b.1.2.1,b.1.2.1 127898,127899 2k7pA 188 7.79e+01 2uxqA 402 7.79e+01 3ls8A 614 7.80e+01 1k8kC 372 7.84e+01 b.69.4.1 68308 1larA 575 7.86e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1k32A 1045 7.94e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1wxxA 382 7.98e+01 b.122.1.9,c.66.1.51 121418,121419 1iuzA 98 7.99e+01 b.6.1.1 22861 2bvbA 137 7.99e+01